TABLE 1.

Bacterial strains and plasmids

Strain or plasmidRelevant propertiesaReference or source
Strains
    Burkholderia cepacia R342,4-DNT degrading strain43
    Escherichia coli HB101Cloning host36
    Escherichia coli JM109Cloning host, lacIq82
    Escherichia coli DH5αCloning host23
    Escherichia coli Top10F′Cloning host, lacIqInvitrogen (Carlsbad, Calif.)
Plasmids
    pCP13E. coli cloning vector (cosmid), Tetr9
    PGEM7F′E. coli cloning vector, AmprPromega (Madison, Wis.)
    pBluescript II SK(+)E. coli cloning vector, AmprStratagene (La Jolla, Calif.)
    pK18E. coli cloning vector, Kanr54
    pK19E. coli cloning vector, Kanr54
    pUC18E. coli cloning vector, Ampr82
    pJS311216-kb plasmid from strain R34, dnt genes28
    pJS31250-kb plasmid from strain R3428
    pJS314pCP13 containing 27-kb DNA fragment from pJS312 R34This work
    pJS324ORF12, dntAaAbAcAd, dntB; pGEM7f containing 14.8-kb EcoRI fragment from pJS314This work
    pJS325dntD, dntE, ORF13, dntG; 12.2-kb EcoRI fragment from pJS31428
    pJS326dntB, ORF3; 8.6-kb HindIII fragment from pJS314This work
    pJS329dntAaAbAcAd, dntB; pGEM7f containing 7.7-kb NsiI fragment from pJS324This work
    pJS332dntAaAbAcAd; pGEM7f containing 5.1-kb NsiI-EcoRV fragment from pJS329This work
    pJS333dntD, pGEM7f containing 1.5-kb XhoI::ClaI fragment from pJS328.28
    pJS336dntD, dntE, ORF13, dntG, ORF9, ORF10; pGEM7f containing 8.2-kb EcoRI::ClaI fragment from pJS325This work
    pJS336ΔBamHIORF13, dntG, ORF9, ORF10; deletion derivative of pJS336This work
    pJS338dntB; pGEM7f containing 3.2-kb BamHI fragment from pJS324This work
    pJS1362dntE, pK18 containing 1.8-kb region from pJS328 that encodes methylmuconic acid semialdehyde dehydrogenaseThis work
    pJS1363ORF13, dntG, pK18 containing 3.0-kb BamHI::PstI fragment from pJS336This work
    pJS1363ΔXmaIdntG, deletion derivative of pJS1363This work
    pJS1364ORF9, ORF10; pK19 containing 3.4-kb PstI::EcoRI fragment from pJS336This work
    pJS1364ΔHindIIIORF10; deletion derivative of pJS1364This work
  • a Tet, tetracycline; Amp, ampicillin; Kan, kanamycin.